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RARGE specifications


Unique identifier OMICS_11997
Alternative names RIKEN Arabidopsis Genome Encyclopedia, RARGE II
Restrictions to use None
Database management system MySQL
Community driven No
Data access Browse
User data submission Not allowed
Maintained Yes


  • Plants and Fungi
    • Arabidopsis thaliana


  • person_outline Kenji Akiyama

Publications for RIKEN Arabidopsis Genome Encyclopedia

RARGE citations


The SERRATE protein is involved in alternative splicing in Arabidopsis thaliana

Nucleic Acids Res
PMCID: 3902902
PMID: 24137006
DOI: 10.1093/nar/gkt894

[…] published AS events or taken from five different Arabidopsis/plant bioinformatics databases: ASIP (http://www.plantgdb.org/ASIP/EnterDB.php), TIGR (http://www.tigr.org/tdb/e2k1/ath1/), RIKEN (http://rarge.gsc.riken.jp/a_splicing/index.pl), ASTRA (http://alterna.cbrc.jp/) and TAIR 7.0 (http://www.arabidopsis.org/index.jsp) (). The size of RT-PCR products ranged between 60 and 700 bp. To visualize […]


Functional Identification and Characterization of the Brassica Napus Transcription Factor Gene BnAP2, the Ortholog of Arabidopsis Thaliana APETALA2

PLoS One
PMCID: 3314020
PMID: 22479468
DOI: 10.1371/journal.pone.0033890

[…] To detect BnAP2 homolog in A. thaliana, all the protein sequences of AP2-domain genes in A. thaliana were downloaded from RARTF database (http://rarge.psc.riken.jp/rartf/) . Selected 145 Arabidopsis AP2-domain genes and target BnAP2 were used to constructed phylogenetic trees with the MEGA5.0 software package –. Phylogenetic relationship was i […]


A Central Regulatory System Largely Controls Transcriptional Activation and Repression Responses to Phosphate Starvation in Arabidopsis

PLoS Genet
PMCID: 2936532
PMID: 20838596
DOI: 10.1371/journal.pgen.1001102

[…] up- and down-regulated genes were identified by the Meta-Analyser tool included in this platform. Transcription factor genes for transcriptomic analysis were identified in the RARTF Database (http://rarge.psc.riken.jp/rartf/) . […]


Genomics and Bioinformatics Resources for Crop Improvement

PMCID: 2852516
PMID: 20208064
DOI: 10.1093/pcp/pcq027

[…] titute Genomic Analysis Laboratory (SIGnAL) is also an information resource that integrates various data sets of significant omics results mainly related to Arabidopsis (http://signal.salk.edu/). The RIKEN Arabidopsis Genome Encyclopedia (RARGE) provides information on various genomic resources built at RIKEN for Arabidopsis research (http://rarge.gsc.riken.jp/db_home.pl) (). Such portal sites hav […]


The Puf family of RNA binding proteins in plants: phylogeny, structural modeling, activity and subcellular localization

BMC Plant Biol
PMCID: 2848763
PMID: 20214804
DOI: 10.1186/1471-2229-10-44

[…] ed PUM-HD. The amino acid sequence of the Drosophila PUM-HD (residues 1093 to 1427) [] was queried against Arabidopsis (http://www.ncbi.nlm.nih.gov/genome/seq/BlastGen/BlastGen.cgi?taxid=3702; http://rarge.gsc.riken.jp/; http://www.tigr.org/tdb/e2k1/osa1/) rice http://rice.plantbiology.msu.edu/index.shtml, moss (Physcomitrella patens, http://www.cosmoss.org/), and Chlamydomonas reinhardtii http:// […]


Involvement of the nuclear cap binding protein complex in alternative splicing in Arabidopsis thaliana

Nucleic Acids Res
PMCID: 2800227
PMID: 19864257
DOI: 10.1093/nar/gkp869

[…] either published AS events or from five different Arabidopsis/plant bioinformatics databases: ASIP (http://www.plantgdb.org/ASIP/EnterDB.php), TIGR (http://www.tigr.org/tdb/e2k1/ath1/), RIKEN (http://rarge.gsc.riken.jp/a_splicing/index.pl), ASTRA (http://alterna.cbrc.jp/) and TAIR 7.0 (http://www.arabidopsis.org/index.jsp). Seven genes were used as controls and amplified intronless regions (At5g03 […]


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RARGE institution(s)
RIKEN Center for Sustainable Resource Science, Yokohama, Kanagawa, Japan; Graduate School of Medicine, Kyoto University, Kyoto, Japan
RARGE funding source(s)
This work was supported by the Japan Society for the Promotion of Science [a Grant-in-Aid for Young Scientists (B) (18700106)].

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